Dataset Information

NRGsuite: a PyMOL plugin to perform docking simulations in real time using FlexAID.

ABSTRACT:

Unlabelled

Ligand protein docking simulations play a fundamental role in understanding molecular recognition. Herein we introduce the NRGsuite, a PyMOL plugin that permits the detection of surface cavities in proteins, their refinements, calculation of volume and use, individually or jointly, as target binding-sites for docking simulations with FlexAID. The NRGsuite offers the users control over a large number of important parameters in docking simulations including the assignment of flexible side-chains and definition of geometric constraints. Furthermore, the NRGsuite permits the visualization of the docking simulation in real time. The NRGsuite give access to powerful docking simulations that can be used in structure-guided drug design as well as an educational tool. The NRGsuite is implemented in Python and C/C++ with an easy to use package installer. The NRGsuite is available for Windows, Linux and MacOS.

Availability and implementation

http://bcb.med.usherbrooke.ca/flexaid.

Contact

rafael.najmanovich@usherbroke.ca.

Supplementary information

Supplementary data are available at Bioinformatics online.

SUBMITTER: Gaudreault F

PROVIDER: S-EPMC4653388 | biostudies-literature | 2015 Dec

REPOSITORIES: biostudies-literature

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Publications

NRGsuite: a PyMOL plugin to perform docking simulations in real time using FlexAID.

Gaudreault Francis F Morency Louis-Philippe LP Najmanovich Rafael J RJ

Bioinformatics (Oxford, England) 20150806 23

<h4>Unlabelled</h4>Ligand protein docking simulations play a fundamental role in understanding molecular recognition. Herein we introduce the NRGsuite, a PyMOL plugin that permits the detection of surface cavities in proteins, their refinements, calculation of volume and use, individually or jointly, as target binding-sites for docking simulations with FlexAID. The NRGsuite offers the users control over a large number of important parameters in docking simulations including the assignment of fle ...[more]

PMID: 26249810

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Dataset Information

NRGsuite: a PyMOL plugin to perform docking simulations in real time using FlexAID.

Unlabelled

Availability and implementation

Contact

Supplementary information

Publications

NRGsuite: a PyMOL plugin to perform docking simulations in real time using FlexAID.

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